General information for g9352.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Trypsin-4.
Parent gene
- The parent gene g9352 is located on chr_1: 2179758..2181103 (+ strand)
Gene structure
- The exon-intron structure of all isoforms are indicated below. CDS regions are colored in green. TSS and TTs that were predicted with CTR-Seq data are indicated in solid circle and squares, respectively. More specific data are shown in the table below.
| Chromosome | Gene | Transcript | Category | ID | Start | End |
|---|---|---|---|---|---|---|
| chr_1 | g9352 | g9352.t4 | TSS | g9352.t4 | 2179734 | 2179734 |
| chr_1 | g9352 | g9352.t4 | isoform | g9352.t4 | 2179758 | 2181103 |
| chr_1 | g9352 | g9352.t4 | exon | g9352.t4.exon1 | 2179758 | 2179931 |
| chr_1 | g9352 | g9352.t4 | exon | g9352.t4.exon2 | 2180094 | 2180340 |
| chr_1 | g9352 | g9352.t4 | cds | g9352.t4.CDS1 | 2180330 | 2180340 |
| chr_1 | g9352 | g9352.t4 | exon | g9352.t4.exon3 | 2180708 | 2180865 |
| chr_1 | g9352 | g9352.t4 | cds | g9352.t4.CDS2 | 2180708 | 2180865 |
| chr_1 | g9352 | g9352.t4 | exon | g9352.t4.exon4 | 2180937 | 2181103 |
| chr_1 | g9352 | g9352.t4 | cds | g9352.t4.CDS3 | 2180937 | 2181103 |
| chr_1 | g9352 | g9352.t4 | TTS | g9352.t4 | 2181156 | 2181156 |
Sequences
>g9352.t4 Gene=g9352 Length=746
ATGAAAATATTCTTAATTTTTGTGAGCTTAATTGCTTCCATTATTGCGGCAAATGTCCGT
AGTGGTGGTAAAATAGTTGGTGGAATTGAAGTGCCAATTGAAAATGTGCCATATCAAGTT
TCTGTCCGGTATAACAACTACCATACTTGTGGAGGTTAACAAAAAAAAGTTCAAGCACTT
CAGGAAGAACTGCTGGATATTTAACAGTTCGTGCTGGTTCTAACAGTAGCATCAATGGTG
GTGAAATTTTCCAAGTATCAAAAATCATTCCACATCCAAATTTCAATGAATATTCACTCG
ATTATGACTTTTCATTGCTTAAATTGACCAATGCTATTGTACTTGATGGAATTACAAAAG
ACAAAGTTCAATTGCCAACACAAGATGAAATTTTAGCTAAAGGAATCGCAATGTTTGTGA
GCGGCTGGGGAGCAACACTTAATCCAAACCAATCAACCAGTATTTTACGAGGTGTCACAA
TCACCAGCATCGACTTTGACACGTGCAATTTAATATACTTGAGAGATGGTGGCTTGGGTG
CATCACAGATATGTGCGGGTGAATTGGCCGGCGGAAAGGACTCGTGTTACGGGGACTCAG
GCGGGCCAATGGTGTCATTGGCTGGTACGAGAAAACTTTATGGCGTTGTGTCATGGGGCA
TAGATTGTGCATTGCCTGGCTGGCCAGGTGTCTATGCAAGAGTTTCACTCGTTCGTAATT
GGATTGATGAAAATACCAAAGTTTAA
>g9352.t4 Gene=g9352 Length=111
MFVSGWGATLNPNQSTSILRGVTITSIDFDTCNLIYLRDGGLGASQICAGELAGGKDSCY
GDSGGPMVSLAGTRKLYGVVSWGIDCALPGWPGVYARVSLVRNWIDENTKV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g9352.t4 | CDD | cd00190 | Tryp_SPc | 1 | 108 | 5.93081E-39 |
| 5 | g9352.t4 | Gene3D | G3DSA:2.40.10.10 | - | 1 | 108 | 4.7E-31 |
| 2 | g9352.t4 | PANTHER | PTHR24276 | POLYSERASE-RELATED | 2 | 109 | 5.7E-34 |
| 3 | g9352.t4 | PANTHER | PTHR24276:SF83 | GH13245P2-RELATED | 2 | 109 | 5.7E-34 |
| 1 | g9352.t4 | Pfam | PF00089 | Trypsin | 2 | 105 | 9.0E-24 |
| 7 | g9352.t4 | ProSitePatterns | PS00135 | Serine proteases, trypsin family, serine active site. | 57 | 68 | - |
| 9 | g9352.t4 | ProSiteProfiles | PS50240 | Serine proteases, trypsin domain profile. | 1 | 110 | 17.185 |
| 8 | g9352.t4 | SMART | SM00020 | trypsin_2 | 1 | 105 | 0.0025 |
| 4 | g9352.t4 | SUPERFAMILY | SSF50494 | Trypsin-like serine proteases | 2 | 110 | 1.28E-33 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0004252 | serine-type endopeptidase activity | MF |
| GO:0006508 | proteolysis | BP |
KEGG
Orthology
This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).
Expression
Transcript expression in Pv11 cells
TPM values are indicated as average +/- STDEV. 
Differential expression
Differentially expressed genes were identified with DESeq2 using the ‘run_DE_analysis.pl’ script from Trinity. Transcripts were determined as differentially expressed when (1) FDR < 0.05 (2) fold change > 2 (TPM calculated by RSEM). DE information and fold change between conditions are indicated in the plot below. There were no conditions that were differentially expressed